A5103079486- Genomics and Phylogenetic Studies
- Cancer-related molecular mechanisms research
- RNA Research and Splicing
- Plant-Microbe Interactions and Immunity
- Molecular Biology Techniques and Applications
- Legume Nitrogen Fixing Symbiosis
- Genetic and phenotypic traits in livestock
- Insect and Arachnid Ecology and Behavior
- RNA and protein synthesis mechanisms
- Plant Molecular Biology Research
- Fungal Biology and Applications
- Insect Resistance and Genetics
- Microbial Natural Products and Biosynthesis
- Plant Pathogens and Resistance
- Genetic Mapping and Diversity in Plants and Animals
- Insect symbiosis and bacterial influences
- Plant Reproductive Biology
- Insect-Plant Interactions and Control
- Potato Plant Research
- Higher Education and Teaching Methods
- RNA modifications and cancer
- Polyamine Metabolism and Applications
- IPv6, Mobility, Handover, Networks, Security
- Chromosomal and Genetic Variations
- Physics of Superconductivity and Magnetism
Nanjing Agricultural University
2014-2024
Michigan State University
2019-2023
Center for Interdisciplinary Studies
2023
Institute of Plant Protection
2019
State Key Laboratory of Biology of Plant Diseases and Insect Pests
2019
Shanghai University
2012
The genomes and transcriptomes of hundreds insects have been sequenced. However, insect community lacks an integrated, up-to-date collection gene data. Here, we introduce the first release InsectBase, available online at http://www.insect-genome.com. database encompasses 138 genomes, 116 transcriptomes, 61 sets, 36 families 60 insects, 7544 miRNAs 69 96 925 piRNAs Drosophila melanogaster Chilo suppressalis, 2439 lncRNA Nilaparvata lugens, 22 536 pathways 78 678 881 untranslated regions (UTR)...
Abstract The codling moth Cydia pomonella , a major invasive pest of pome fruit, has spread around the globe in last half century. We generated chromosome-level scaffold assembly including Z chromosome and portion W chromosome. This reveals duplication an olfactory receptor gene ( OR3 ), which we demonstrate enhances ability C. to exploit kairomones pheromones locating both host plants mates. Genome-wide association studies contrasting insecticide-resistant susceptible strains identify...
Abstract Genetic mapping to identify genes and alleles associated with or causing economically important quantitative trait variation in livestock animals such as pigs is a major goal animal genetic improvement. Despite recent advances high-throughput genotyping technologies, the resolution of remains poor due part low density genotyped variant sites. In this study, we overcame limitation by developing reference haplotype panel for based on 2259 whole genome-sequenced representing 44 pig...
Piwi-interacting RNAs (piRNAs) are a class of small non-coding RNA primarily expressed in germ cells that can silence transposons at the post-transcriptional level. Accurate prediction piRNAs remains significant challenge.We developed program for piRNA annotation (Piano) using piRNA-transposon interaction information. We downloaded 13,848 Drosophila and 261,500 transposons. The were aligned to with maximum three mismatches. Then, interactions predicted by RNAplex. Triplet elements combining...
Parasitoid wasps are abundant and diverse hymenopteran insects that lay their eggs into the internal body (endoparasitoid) or on external surface (ectoparasitoid) of hosts. To make a more conducive environment for wasps' young, both ecto- endoparasitoids inject venoms host to modulate immunity, metabolism development. Endoparasitoids have evolved from ectoparasitoids independently in different lineages. Pteromalus puparum, pupal endoparasitoid various butterflies, represents relatively...
Since the first plant receptor-like kinase (RLK) gene ZmPK1 was cloned from Zea mays in 1990 (Walker and Zhang, 1990Walker J.C. Zhang R. Relationship of a putative receptor protein maize to S-locus glycoproteins Brassica.Nature. 1990; 345: 743-746Crossref PubMed Google Scholar), this large family has been extensively studied shown play crucial roles growth, development, immunity (Tang et al., 2017Tang D. Wang G. Zhou J.M. Receptor Kinases Plant-Pathogen Interactions: More Than Pattern...
Parasitoid wasps are well-known natural enemies of major agricultural pests and arthropod borne diseases. The parasitoid wasp Macrocentrus cingulum (Hymenoptera: Braconidae) has been widely used to control the notorious insect Ostrinia furnacalis (Asian Corn Borer) O. nubilalis (European corn borer). One striking phenomenon exhibited by M. is polyembryony, formation multiple genetically identical offspring from a single zygote. Moreover, employs passive parasitic strategy preventing host's...
Over the last decade, RNA-seq has produced a massive amount of plant transcriptomic sequencing data deposited in public databases. Reanalysis these datasets can generate additional novel hypotheses not included original studies. However, large volume and requirement for specialized computational resources expertise present barrier experimental biologists to explore repositories. Here, we introduce PlantExp (https://biotec.njau.edu.cn/plantExp), database platform exploration gene expression...
Sterols are vital nutrients and signals for eukaryotic organisms. Mammalian cells known to sense respond sterol status changes maintain them within strict limits, a process associated with various human diseases. However, this is not understood in oomycete pathogens, most of which auxotrophic must obtain sterols from host plants. Here, we report that
Abstract Summary Fungi form a large and heterogeneous group of eukaryotic organisms with diverse ecological niches. The high importance fungi contrasts our limited understanding fungal lifestyle adaptability to environment. Over the last decade, high-throughput sequencing technology produced tremendous RNA-sequencing (RNA-seq) data. However, there is no comprehensive database for mycologists conveniently explore gene expression alternative splicing. Here, we have developed FungiExp, an...
Transmembrane kinases (TMKs) are important mediators of cellular signaling cascades. The kinase domains most metazoan and plant TMKs belong to the serine/threonine/tyrosine (S/T/Y-kinase) superfamily. They share a common origin with prokaryotic have diversified into distinct subfamilies. Diverse members eukaryotic crown radiation such as amoebae, ciliates, red brown algae (grouped here under umbrella term "protists") long diverged from higher eukaryotes since their ancient ancestry, making...
Abstract Background Alternative splicing is an important biological process whose precision must be tightly regulated during growth and development. Although there are species, disease (e.g. cancers), or study specific databases available in many organisms, no database exists livestock animals specifically tailored for alternative splicing. Description We present this the development implementation of a atlas ( ASlive.org ). Using publicly RNASeq data sets across tissues, cell types,...
RNA-seq has been widely used in experimental studies and produced a massive amount of data deposited public databases. New biological insights can be obtained by retrospective analyses previously published data. However, the barrier to efficiently utilize these remains high, especially for those who lack bioinformatics skills computational resources. We present MetazExp (https://bioinfo.njau.edu.cn/metazExp), database gene expression alternative splicing profiles based on 53 615 uniformly...
Abstract Yams (Dioscorea spp.) are a highly important class of horticultural crops, serving as staple food for millions people in Africa and contributing significantly to security. They also widely cultivated East Asia medicinal herbs, bringing substantial economic incomes. Diverse omics data play pivotal role advancing yam research breeding. However, these often scattered, lacking systematic organization analysis, which underscores the need centralized comprehensive management. In view...
Abstract Genetic mapping to identify genes and alleles associated with or causing economically important quantitative trait variation in livestock animals such as pigs is a major goal the genetic improvement animals. Despite recent advances high throughput genotyping technologies, resolution of remains poor due part low density genotyped variant sites. In this study, we overcame limitation by developing reference haplotype panel for based on 2,259 whole genome sequenced representing 44 pig...
Oomycete pathogens secrete numerous crinkling and necrosis proteins (CRNs) to manipulate plant immunity promote infection. However, the functional mechanism of CRN effectors is still poorly understood. Previous research has shown that Phytophthora sojae effector PsCRN108 binds promoter HSP90s inhibits their expression, resulting in impaired immunity. In this study, we found addition HSP90, also suppressed other Heat Shock Protein ( HSP) family genes, including HSP40. Interestingly, inhibited...
Frequent A-to-I RNA editing has recently been identified in fungi despite the absence of recognizable homologues metazoan ADARs ("Adenosine Deaminases Acting on RNA"). In particular, there is emerging evidence showing that involved sexual reproduction filamentous fungi. Here, we report creation FairBase — a fungal database provides platform for deep exploration to relevant academic communities. This includes comprehensive collection sites six species, together with extensive annotations each...
Livestock animals is of great significance in agricultural production. However, the role specific gene expression, especially alternative splicing determining phenotype, not well understood. The livestock research community needs a expression and database contributing to genetic improvement.We report construction LivestockExp ( https://bioinfo.njau.edu.cn/livestockExp ), web-based server for exploration using 43,710 uniformly processed RNA-seq samples from several relative species across six...
The publicly archived RNA-seq data has grown exponentially, while its valuable information not yet been fully discovered and utilized, such as alternative splicing integration with gene expression. This is especially true for fish species which play important roles in ecology, research the food industry. Furthermore, there a lack of online platform to analyze users' new individually jointly existing comprehensive analysis Here, we present FishExp, web-based covering expression 26,081...
Abstract Soybean (Glycine max L. Merrill) is one of the most important economical crops. A large number whole-genome resequencing datasets have been generated and are increasingly expanded for exploring genetic diversity mining quantitative trait loci. Most genome-wide association studies focused on single-nucleotide polymorphisms, short insertions, deletions. Nevertheless, structure variants mainly caused by transposon element mobilization not fully considered. To fill this gap, we...
MicroRNA plays an important role in multifarious biological processes by regulating their corresponding target genes. However, the function and regulatory mechanism of fungal microRNA-like RNAs (milRNAs) remain poorly understood.In this study, combined with deep sequencing bioinformatics analysis, milRNAs targets from Trichoderma guizhouence NJAU 4742 were isolated identified under solid-state fermentation (SSF) using rice straw as sole carbon source at 28 °C 37 °C, respectively.A critical...
Dear Editor, Since the first plant receptor-like kinase (RLK) gene ZmPK1 was cloned from Zea mays in 1990 (Walker & Zhang, 1990), this large family has been extensively studied and shown to play crucial roles growth, development, immunity (Tang et al ., 2017). RLKs are widespread kingdom, while biological functions of most remain largely elusive (Dievart 2020). Given share a conserved monophyletic RLK/Pelle domain, several model plants classified into distinct families by extracellular...